scholarly journals Evaluating Wheat Microsatellite Markers for the Use in Genetic Analysis of Thinopyrum, Dasypyrum, and Pseudoroegneria Species

2013 ◽  
Vol 2013 ◽  
pp. 1-3 ◽  
Author(s):  
Pavel Yu. Kroupin ◽  
Mikhail G. Divashuk ◽  
Igor A. Fesenko ◽  
Gennady I. Karlov
Keyword(s):  
Genetic Analysis ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Wild Relatives ◽  
Wheat Genome ◽  
Dasypyrum Villosum ◽  
Thinopyrum Intermedium ◽  
Phylogenetic Studies ◽  
Thinopyrum Bessarabicum ◽  
Thinopyrum Elongatum

A set of 42 SSRs of wheat were evaluated for their cross-amplification on the DNA of Thinopyrum ponticum, Thinopyrum intermedium, Thinopyrum elongatum, Thinopyrum bessarabicum, Pseudoroegneria stipifolia, and Dasypyrum villosum. The number of the wheat SSR markers that amplified DNA fragments with determined size for Th. ponticum was 33 (78.6%); for Th. intermedium, 28 (66.7%); for Th. elongatum, 24 (57.1%); for Th. bessarabicum, 24 (57.1%); for P. stipifolia, 26 (69.1%); and for D. villosum, 29 (69.0%). Twenty-four primer pairs of wheat SSR markers were successfully amplified from all investigated species. The dataset can be used for phylogenetic studies of wild relatives of wheat, for the estimation of their diversity, and for the introgression of agronomically valuable genes into wheat genome.

scholarly journals Methods for Development of Microsatellite Markers: An Overview

2014 ◽  
Vol 6 (1) ◽  
pp. 1-13 ◽  
Author(s):  
Siju SENAN ◽  
Dhanya KIZHAKAYIL ◽  
Bhaskaran SASIKUMAR ◽  
Thotten Elampilay SHEEJA
Keyword(s):  
Microsatellite Markers ◽  
Plant Breeding ◽  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Sequence Repeat ◽  
Phylogenetic Studies ◽  
Recent Advancement ◽  
The Status ◽  
Simple Sequence ◽  
New Strategies

Microsatellite or Simple Sequence Repeat (SSR) markers have evolved to the status of a most versatile and popular genetic marker in a ubiquity of plant systems. Due to their co-dominant, hyper-variable and multiallelic nature, they are the prominent markers of choice for fingerprinting, conservation genetics, plant breeding and phylogenetic studies. Despite its development of a new set of SSR markers for a species remained time consuming and expensive for many years. However, with the recent advancement in genomics, new strategies/protocols are now available for the generation of SSR markers. This review presents an overview on microsatellite markers with a special emphasis on the various strategies used for the development of microsatellite markers

Genome evolution of intermediate wheatgrass as revealed by EST-SSR markers developed from its three progenitor diploid species

Genome ◽  
2015 ◽  
Vol 58 (2) ◽  
pp. 63-70 ◽  
Author(s):  
Richard R.-C. Wang ◽  
Steve R. Larson ◽  
Kevin B. Jensen ◽  
B. Shaun Bushman ◽  
Lee R. DeHaan ◽  
...  
Keyword(s):  
Scientific Literature ◽  
Diploid Species ◽  
Triticum Aestivum L ◽  
Thinopyrum Intermedium ◽  
Forage Crop ◽  
Intermediate Wheatgrass ◽  
Ssr Primers ◽  
Thinopyrum Bessarabicum ◽  
Thinopyrum Elongatum ◽  
Available Information

Intermediate wheatgrass (Thinopyrum intermedium (Host) Barkworth & D.R. Dewey), a segmental autoallohexaploid (2n = 6x = 42), is not only an important forage crop but also a valuable gene reservoir for wheat (Triticum aestivum L.) improvement. Throughout the scientific literature, there continues to be disagreement as to the origin of the different genomes in intermediate wheatgrass. Genotypic data obtained from newly developed EST-SSR primers derived from the putative progenitor diploid species Pseudoroegneria spicata (Pursh) Á. Löve (St genome), Thinopyrum bessarabicum (Savul. & Rayss) Á. Löve (J = Jb = Eb), and Thinopyrum elongatum (Host) D. Dewey (E = Je = Ee) indicate that the V genome of Dasypyrum (Coss. & Durieu) T. Durand is not one of the three genomes in intermediate wheatgrass. Based on all available information in the literature and findings in this study, the genomic designation of intermediate wheatgrass should be changed to JvsJrSt, where Jvs and Jr represent ancestral genomes of present-day Jb of Th. bessarabicum and Je of Th. elongatum, with Jvs being more ancient. Furthermore, the information suggests that the St genome in intermediate wheatgrass is most similar to the present-day St found in diploid species of Pseudoroegneria from Eurasia.

scholarly journals Novel polymorphic microsatellite markers from turmeric, Curcuma longa L. (Zingiberaceae)

2013 ◽  
Vol 72 (2) ◽  
pp. 407-412 ◽  
Author(s):  
Siju Senan ◽  
Dhanya Kizhakayil ◽  
Thotten E. Sheeja ◽  
Bhaskaran Sasikumar ◽  
Alangar I. Bhat ◽  
...  
Keyword(s):  
Genetic Analysis ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Microsatellite Loci ◽  
Simple Sequence Repeat ◽  
Curcuma Longa ◽  
Sequence Repeat ◽  
Discrimination Power ◽  
Polymorphic Microsatellite ◽  
Simple Sequence

Abstract - Twenty one polymorphic microsatellite loci were isolated and characterized from turmeric (Curcuma longa L.). These markers were screened across thirty accessions. The number of alleles observed for each locus ranged from two to eight with an average of 4.7 alleles per locus. The discrimination power of these markers ranged from 0.25 to 0.67 (average 0.6). The simple sequence repeat (SSR) markers can complement the currently available SSR markers and would be useful for the genetic analysis of turmeric accessions.

Microsatellite Marker: Importance and Implications of Cross-genome Analysis for Finger Millet (Eleusine coracana (L.) Gaertn)

2020 ◽  
Vol 9 (3) ◽  
pp. 160-170
Author(s):  
Thumadath P.A. Krishna ◽  
Maharajan Theivanayagam ◽  
Gurusunathan V. Roch ◽  
Veeramuthu Duraipandiyan ◽  
Savarimuthu Ignacimuthu
Keyword(s):  
Molecular Marker ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Genome Analysis ◽  
Related Species ◽  
Finger Millet ◽  
Crop Improvement ◽  
Human Beings ◽  
Closely Related Species ◽  
Genome Amplification

Finger millet is a superior staple food for human beings. Microsatellite or Simple Sequence Repeat (SSR) marker is a powerful tool for genetic mapping, diversity analysis and plant breeding. In finger millet, microsatellites show a higher level of polymorphism than other molecular marker systems. The identification and development of microsatellite markers are extremely expensive and time-consuming. Only less than 50% of SSR markers have been developed from microsatellite sequences for finger millet. Therefore, it is important to transfer SSR markers developed for related species/genus to finger millet. Cross-genome transferability is the easiest and cheapest method to develop SSR markers. Many comparative mapping studies using microsatellite markers clearly revealed the presence of synteny within the genomes of closely related species/ genus. Sufficient homology exists among several crop plant genomes in the sequences flanking the SSR loci. Thus, the SSR markers are beneficial to amplify the target regions in the finger millet genome. Many SSR markers were used for the analysis of cross-genome amplification in various plants such as Setaria italica, Pennisetum glaucum, Oryza sativa, Triticum aestivum, Zea mays and Hordeum vulgare. However, there is very little information available about cross-genome amplification of these markers in finger millet. The only limited report is available for the utilization of cross-genome amplified microsatellite markers in genetic analysis, gene mapping and other applications in finger millet. This review highlights the importance and implication of microsatellite markers such as genomic SSR (gSSR) and Expressed Sequence Tag (EST)-SSR in cross-genome analysis in finger millet. Nowadays, crop improvement has been one of the major priority areas of research in agriculture. The genome assisted breeding and genetic engineering plays a very crucial role in enhancing crop productivity. The rapid advance in molecular marker technology is helpful for crop improvement. Therefore, this review will be very helpful to the researchers for understanding the importance and implication of SSR markers in closely related species.

Rhodnius pallescens microsatellite markers for population genetic analysis in Rhodnius ecuadoriensis: preliminary assessment

2019 ◽  
Vol 40 (2) ◽  
Author(s):  
Mario J. Grijalva
Keyword(s):  
Genetic Analysis ◽  
Microsatellite Markers ◽  
Population Genetic ◽  
Preliminary Assessment ◽  
Population Genetic Analysis ◽  
Rhodnius Ecuadoriensis ◽  
Rhodnius Pallescens

Rhodnius ecuadoriensis Lent & León (Hemiptera: Reduviidae) es el prinicipal vector de    la enfermedad de Chagas en Ecuador, donde la estructura genética de sus poblaciones es poco conocida. Nosotros probamos seis Repeticiones Cortas en Tamdem (RCT) de R. pallescens Barber en poblaciones selváticas y domésticas de R. ecuadoriensis. Dos microsatelites fueron monomórficos, dos dieron resultados ambiguos y dos fueron polimórficos (16 y 19 alelos) y fueron utilizados para análisis. Los resultados de las frecuencias alélicas, AMOVA y los pruebas Bayesianas para genética favorecen la teorí­a de la existencia de una sola población. Estos resultados preliminares sugieren que las poblaciones selváticas y domésticas d R. ecuadoriensis intercambian frecuentemente migrantes. Por consiguiente el control de la Enfermedad de Chagas requiere vigilancia entomológica continua en la costa del Ecuador.

scholarly journals Keragaman Genetik 96 Aksesi Plasma Nutfah Padi Berdasarkan 30 Marka SSR Terpaut Gen Pengatur Waktu Pembungaan (HD Genes)

2016 ◽  
Vol 7 (2) ◽  
pp. 76
Author(s):  
Dwinita Wikan Utami ◽  
Sutoro Sutoro ◽  
Nurul Hidayatun ◽  
Andari Risliawati ◽  
Ida Hanarida
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Heading Date ◽  
Germplasm Collection ◽  
Dna Fingerprint ◽  
Early Maturity ◽  
Plant Variety ◽  
Variety Protection ◽  
Genetic Analyzer

<p>Genetic Diversity of 96 Accession of Rice Germplasm<br />Using 30 SSR Markers Linked to Heading Date Genes (HD<br />Genes). Dwinita W. Utami, Sutoro, Nurul Hidayatun,<br />Andari Risliawati, and Ida Hanarida. Rice with early<br />maturity is one of an important genetic resources in rice<br />germplasm collection. Characterization and identification of<br />genetic diversity is an important issue for plant variety protection.<br />Molecular identification by microsatellite markers<br />using Genetic Analyzer enables resolve of this issue. The<br />objective of this research is to identify the genetic diversity of<br />96 rice accessions based on their specific DNA fingerprint<br />using microsatellite markers. A total of 96 accessions consisting<br />of a diverse variety of maturity classification were<br />genotyped with 30 SSR markers linked to HD genes which<br />spread out in 12 chromosomes of rice geneome. The total<br />297 alleles were detected indicated the level of marker<br />informativeness. RM5607 generated 7 allele with the size<br />range from 103 to 197 and the highest PIC at 0.90. RM3571<br />(linked to HD12 gene) has a significant value associated with<br />varieties which have early maturity trait. Clustering analysis<br />showed the cluster based on Sub Species genome background<br />and on early maturity trait.</p>

scholarly journals Study of the gene pool of the winter rye Secale cereale L. of the Republic of Belarus using microsatellite markers

2021 ◽  
Vol 66 (2) ◽  
pp. 215-222
Author(s):  
V. S. Mandrusova ◽  
I. S. Gordej ◽  
O. M. Lyusikov ◽  
V. E. Shimko ◽  
I. A. Gordej
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Gene Pool ◽  
Winter Rye ◽  
Interpopulation Variability ◽  
Content Index ◽  
Secale Cereale L ◽  
New Varieties ◽  
The Republic

In this work, the genetic diversity of the modern gene pool of the winter rye (S. cereal L.) of the Republic of Belarus from 20 actual breeding samples was investigated using 15 microsatellite (SSR) markers to develop divergent crossing combinations in breeding for heterosis. It was shown that the formed set of SSR markers is highly effective – the informational content index (PIC) varied from 0.50 to 0.83 and averaged 0.72. The most effective microsatellite markers (SCM28, SCM43, SCM101 and SCM102) were identified and can be successfully used to study the genetic diversity of rye. It has been established that the modern gene pool of the winter rye of the Republic of Belarus is generally characterized by fairly wide genetic diversity (interpopulation variability) – all collection samples are characterized by a unique allelic composition of the studied microsatellite loci. Based on investigation results, a hierarchical clustering dendrogram was constructed, which made it possible to determine the most genetically divergent combinations of crosses. The information obtained can be used for the development of an effective scheme allowing to develop new varieties and hybrids in the practical breeding of rye for heterosis.

Characterization of six wheat × Thinopyrum intermedium derivatives by GISH, RFLP, and multicolor GISH

Genome ◽  
2003 ◽  
Vol 46 (3) ◽  
pp. 490-495 ◽  
Author(s):  
F P Han ◽  
G Fedak ◽  
A Benabdelmouna ◽  
K Armstrong ◽  
T Ouellet
Keyword(s):  
Genomic Dna ◽  
Aegilops Tauschii ◽  
Rflp Analysis ◽  
Aegilops Speltoides ◽  
Thinopyrum Intermedium ◽  
B Genome ◽  
A Genome ◽  
Genetic Stocks ◽  
Disomic Addition Lines ◽  
Thinopyrum Elongatum

Restriction fragment length polymorphism (RFLP) analysis and multicolor genomic in situ hybridization (GISH) are useful tools to precisely characterize genetic stocks derived from crosses of wheat (Triticum aestivum) with Thinopyrum intermedium and Thinopyrum elongatum. The wheat × Th. intermedium derived stocks designated Z1, Z2, Z3, Z4, Z5, and Z6 were initially screened by multicolor GISH using Aegilops speltoides genomic DNA for blocking and various combinations of genomic DNA from Th. intermedium, Triticum urartu, and Aegilops tauschii for probes. The probing (GISH) results indicated that lines Z1 and Z3 were alien disomic addition lines with chromosome numbers of 2n = 44. Z2 was a substitution line in which chromosome 2D was substituted by a pair of Th. intermedium chromosomes; this was confirmed by RFLP and muticolour GISH. Z4 (2n = 44) contained two pairs of wheat – Th. intermedium translocated chromosomes; one pair involved A-genome chromosomes, the other involved D- and A-genome chromosomes. Z5 (2n = 44) contained one pair of wheat – Th. intermedium translocated chromosomes involving the D- and A-genome chromosomes of wheat. Z6 (2n = 44) contained one pair of chromosomes derived from Th. intermedium plus another pair of translocated chromosomes involving B-genome chromosomes of wheat. Line Z2 was of special interest because it has some resistance to infection by Fusarium graminearum.Key words: wheat, Thinopyrum intermedium, addition, substitution, and translocation lines, GISH, multicolor GISH, RFLP.

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